Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005927.1 Hibiscus syriacus cultivar Beakdansim tig00013915_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 407020
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1130 original size:17 final size:17
Alignment explanation
Indices: 1108--1152 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
1098 GGGTAGAAGG
1108 AATAGAAGAAATGGAAA
1 AATAGAAGAAATGGAAA
1125 AATAGAAGAAATGGAAA
1 AATAGAAGAAATGGAAA
**
1142 GGTAGAAGAAA
1 AATAGAAGAAA
1153 GGATTTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.27, T:0.11
Consensus pattern (17 bp):
AATAGAAGAAATGGAAA
Found at i:1381 original size:16 final size:16
Alignment explanation
Indices: 1340--1387 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
1330 ATTTCCTTGG
*
1340 CTTTGCTTTCTTTTTGA
1 CTTT-CTTTCTTTTTGT
*
1357 ATTTC-TTCTTTTTGT
1 CTTTCTTTCTTTTTGT
1372 CTTTCTTTCTTTTTGT
1 CTTTCTTTCTTTTTGT
1388 GCTAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.48
16 11 0.41
17 3 0.11
ACGTcount: A:0.04, C:0.17, G:0.08, T:0.71
Consensus pattern (16 bp):
CTTTCTTTCTTTTTGT
Found at i:18403 original size:105 final size:105
Alignment explanation
Indices: 18197--18404 Score: 263
Period size: 105 Copynumber: 2.0 Consensus size: 105
18187 CTCATATTTC
* * * * * *
18197 TGGTGAGACGGGTCAGGCTACTGTGGATGCGGGTGTTACTTCTCTGGGAGCAACAGTTCAGCAAG
1 TGGTGAGACGAGTCAAGCTACTATGGATACGGGTGTTACTTCTCTAGGAGCAACAGTTCAACAAG
* *
18262 AGGTAGCTGGTGCAACCTCATTTAATGCAACCGAGGATTA
66 AGGTAGATGGTGCAACCTCAGTTAATGCAACCGAGGATTA
* * * *
18302 TGGTGAGATGAGTCAAGCTACTATGGATATGGGTGTTACTTTTCTAGGAGCAGCAGTTCAACAAG
1 TGGTGAGACGAGTCAAGCTACTATGGATACGGGTGTTACTTCTCTAGGAGCAACAGTTCAACAAG
* * * * *
18367 AGGTTGATGGTGCAACCTTAGTTAGTGCAGCTGAGGAT
66 AGGTAGATGGTGCAACCTCAGTTAATGCAACCGAGGAT
18405 ACTGAGTTGG
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
105 86 1.00
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (105 bp):
TGGTGAGACGAGTCAAGCTACTATGGATACGGGTGTTACTTCTCTAGGAGCAACAGTTCAACAAG
AGGTAGATGGTGCAACCTCAGTTAATGCAACCGAGGATTA
Found at i:26331 original size:26 final size:27
Alignment explanation
Indices: 26295--26346 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
26285 TCATAAAACT
*
26295 TAATATTATTATTTTTAAATATTAATA
1 TAATATTATTATTATTAAATATTAATA
26322 TAAT-TTATTATTATTAAATATTAAT
1 TAATATTATTATTATTAAATATTAAT
26347 TTTATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TAATATTATTATTATTAAATATTAATA
Found at i:26369 original size:29 final size:31
Alignment explanation
Indices: 26320--26406 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 31
26310 TAAATATTAA
* *
26320 TATAA-TTTATTATTATTAAATATTAAT-TT-
1 TATAATTTTATTAATA-AAAATATTAATATTG
**
26349 TATAATTTTATTAATAAAAATAAAAATATTGG
1 TATAATTTTATTAATAAAAATATTAATATT-G
26381 TAT-ATTTTATTGAAATAAAAATATTA
1 TATAATTTTATT--AATAAAAATATTA
26407 TAAATTATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
29 13 0.28
30 11 0.24
31 8 0.17
32 3 0.07
33 11 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
TATAATTTTATTAATAAAAATATTAATATTG
Found at i:26417 original size:26 final size:27
Alignment explanation
Indices: 26366--26417 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
26356 TTATTAATAA
* * *
26366 AAATAAAAATATTGGTATATTTTATTG
1 AAATAAAAATATTGATAAATTATATTG
26393 AAATAAAAATATT-ATAAATTATATT
1 AAATAAAAATATTGATAAATTATATT
26418 AATTATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (27 bp):
AAATAAAAATATTGATAAATTATATTG
Found at i:26538 original size:21 final size:19
Alignment explanation
Indices: 26493--26560 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
26483 TCTTTATTAA
* *
26493 AATATTTTTAGATTATAAT
1 AATATTATTAAATTATAAT
*
26512 ATTATTATTAAATATATAAAT
1 AATATTATTAAAT-TAT-AAT
*
26533 AATATTATT-CATTATTAAT
1 AATATTATTAAATTA-TAAT
26552 AAT-TTATTA
1 AATATTATTA
26561 TATATTATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
18 5 0.12
19 18 0.45
20 6 0.15
21 11 0.28
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
AATATTATTAAATTATAAT
Found at i:28002 original size:40 final size:40
Alignment explanation
Indices: 27885--27995 Score: 168
Period size: 40 Copynumber: 2.8 Consensus size: 40
27875 ACCGTAGTGC
* *
27885 TACACATAAGGTCATGCCCACCATATACACCAAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
* * *
27925 TACACATAAGGTTGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
27965 TACACATAAGGTCGTGCCCACCATATTACAC
1 TACACATAAGGTCGTGCCCACCATA-TACAC
27996 TTAGTGTCCT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 58 0.92
41 5 0.08
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:29638 original size:30 final size:31
Alignment explanation
Indices: 29602--29663 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
29592 AATTACCATT
29602 AAACCAAGACACCT-AACCTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
*
29632 AAACCAAGATACCTAAACCTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
29663 A
1 A
29664 TAAGTGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.39, C:0.34, G:0.03, T:0.24
Consensus pattern (31 bp):
AAACCAAGACACCTAAACCTTATCATCTTCC
Found at i:33760 original size:23 final size:26
Alignment explanation
Indices: 33705--33760 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 26
33695 CATTATGCAT
*
33705 TTTCATTTATGACAACTGTTTATATA
1 TTTCATTTATGACAACTGATTATATA
33731 TTT--TTTAT-AC-ACT-ATTATATA
1 TTTCATTTATGACAACTGATTATATA
33752 TTTCATTTA
1 TTTCATTTA
33761 GGGAACCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 10 0.37
22 3 0.11
23 6 0.22
24 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTCATTTATGACAACTGATTATATA
Found at i:34297 original size:59 final size:59
Alignment explanation
Indices: 34214--34752 Score: 785
Period size: 59 Copynumber: 9.1 Consensus size: 59
34204 TTTGCACGCA
* * * *
34214 AAGTGCCCATTTC-GGAAATTCATACACTTAGTATGAATTCCTTAACAGTTTAGCACACG
1 AAGTG-CCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* * *
34273 AAGTGCCATATCTGGAAATTCATACACTTTGTATGATTTCCTTACCATTTTAGTACAAG
1 AAGTGCCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* ** * * *
34332 AAGTGCCATATTTATAAATTCATACACTTAGCATGATTTCCTTATCATTTTAACACACG
1 AAGTGCCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* *
34391 AAGTTCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
1 AAGTGCCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* *
34450 AAGTGTGC-TATCTGGAAATTCATTCACTTAGTATGATTTCCTTACCATTTTAGCACACG
1 AAGTG-CCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* * * * * *
34509 AAGTGCCCTGTCTAGAAATTCATACACTAAGTATGATTTCCTTACCATTTAAGAACACG
1 AAGTGCCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* *
34568 AAGTGCCATATCTAGAAATTCATACACTTAGTATGATCTCCTTACCATTTTAGCACACG
1 AAGTGCCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
*
34627 AAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
1 AAGTGCCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* *
34686 AAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACT
1 AAGTGCCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
*
34745 TAGTGCCA
1 AAGTGCCA
34753 CATACATCAA
Statistics
Matches: 431, Mismatches: 46, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
58 7 0.02
59 423 0.98
60 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (59 bp):
AAGTGCCATATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
Found at i:38527 original size:40 final size:41
Alignment explanation
Indices: 38450--38536 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 41
38440 ACCATAATGC
*
38450 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGT-GT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTCCT
* * **
38490 TACACATATGGTCGTGCCTACCATATTACA-CTTAGTGTCCT
1 TACACATAAGGTCGTGCCCACCATA-TACACCGAAGTGTCCT
38531 TACACA
1 TACACA
38537 CTATATTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 29 0.73
41 11 0.28
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (41 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTCCT
Found at i:40176 original size:31 final size:31
Alignment explanation
Indices: 40124--40216 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
40114 AATTACCATT
40124 AAACCAAGACACCT-AACCTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
40154 AAACCAAGACACCTAAACCTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
40185 AAACCAAGACACCTAAACCTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
40216 A
1 A
40217 TAAGTGAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 14 0.23
31 48 0.77
ACGTcount: A:0.39, C:0.35, G:0.03, T:0.23
Consensus pattern (31 bp):
AAACCAAGACACCTAAACCTTATCATCTTCC
Found at i:42078 original size:16 final size:15
Alignment explanation
Indices: 42059--42088 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
42049 TTTGTTATGT
42059 GATTTTTCATTTTTTG
1 GATTTTT-ATTTTTTG
42075 GATTTTTATTTTTT
1 GATTTTTATTTTTT
42089 ATTTTATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.73
Consensus pattern (15 bp):
GATTTTTATTTTTTG
Found at i:42087 original size:7 final size:7
Alignment explanation
Indices: 42077--42136 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
42067 ATTTTTTGGA
42077 TTTTTAT
1 TTTTTAT
42084 TTTTTAT
1 TTTTTAT
* *
42091 TTTATCT
1 TTTTTAT
42098 TTTTTGACT
1 TTTTT-A-T
42107 TTTTT-T
1 TTTTTAT
*
42113 TTATT-T
1 TTTTTAT
42119 TTTTTAT
1 TTTTTAT
*
42126 TTTTTCT
1 TTTTTAT
42133 TTTT
1 TTTT
42137 AATGTACTAC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
6 10 0.23
7 27 0.63
9 6 0.14
ACGTcount: A:0.10, C:0.05, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTAT
Found at i:42119 original size:9 final size:9
Alignment explanation
Indices: 42061--42130 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
42051 TGTTATGTGA
*
42061 TTTTTCATT
1 TTTTTTATT
**
42070 TTTTGGATT
1 TTTTTTATT
42079 TTTATTT-TT
1 TTT-TTTATT
*
42088 TATTTTATCT
1 TTTTTTAT-T
*
42098 TTTTTGACTTT
1 TTTTTTA--TT
42109 TTTTTTATT
1 TTTTTTATT
42118 TTTTTTATT
1 TTTTTTATT
42127 TTTT
1 TTTT
42131 CTTTTTAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 3 0.06
9 30 0.62
10 7 0.15
11 7 0.15
12 1 0.02
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (9 bp):
TTTTTTATT
Found at i:42719 original size:12 final size:12
Alignment explanation
Indices: 42702--42780 Score: 61
Period size: 12 Copynumber: 6.3 Consensus size: 12
42692 TATTAAGTTA
42702 TTATATTTAT-T
1 TTATATTTATAT
42713 GTTATATTTATAT
1 -TTATATTTATAT
42726 TTATTATTTATAT
1 TTA-TATTTATAT
* *
42739 GTATTATATATAT
1 TTA-TATTTATAT
* *
42752 TTCTATATATAT
1 TTATATTTATAT
* *
42764 TTCTATATATTAT
1 TTATATTTA-TAT
42777 TTAT
1 TTAT
42781 TTATTATTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
12 31 0.53
13 28 0.47
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (12 bp):
TTATATTTATAT
Found at i:42735 original size:13 final size:13
Alignment explanation
Indices: 42662--42753 Score: 68
Period size: 13 Copynumber: 7.1 Consensus size: 13
42652 TTTTAGATAA
42662 TATTATTATATATT
1 TATTATT-TATATT
*
42676 T-TAATTTATA-T
1 TATTATTTATATT
*
42687 TATTATATTA-AGT
1 TATTAT-TTATATT
42700 TATTATATT-TATT
1 TATTAT-TTATATT
42713 GT-TATATTTATATT
1 -TAT-TATTTATATT
*
42727 TATTATTTATATG
1 TATTATTTATATT
*
42740 TATTATATATATT
1 TATTATTTATATT
42753 T
1 T
42754 CTATATATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
11 2 0.03
12 8 0.12
13 44 0.69
14 10 0.16
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTATTTATATT
Found at i:42745 original size:9 final size:9
Alignment explanation
Indices: 42661--42776 Score: 61
Period size: 8 Copynumber: 13.2 Consensus size: 9
42651 CTTTTAGATA
42661 ATAT-TATT
1 ATATATATT
*
42669 ATATATTTT
1 ATATATATT
*
42678 AATTTATATT
1 -ATATATATT
42688 AT-TATATT
1 ATATATATT
42696 A-AGT-TATT
1 ATA-TATATT
*
42704 ATATTTATT
1 ATATATATT
*
42713 GT-TATATT
1 ATATATATT
42721 -TATAT-TT
1 ATATATATT
42728 AT-TAT-TT
1 ATATATATT
*
42735 ATATGTATT
1 ATATATATT
42744 ATATATATTTCT
1 ATATATA--T-T
42756 ATATATATTT
1 ATATATA-TT
*
42766 CTATATATT
1 ATATATATT
42775 AT
1 AT
42777 TTATTTATTA
Statistics
Matches: 86, Mismatches: 9, Indels: 25
0.72 0.08 0.21
Matches are distributed among these distances:
7 10 0.12
8 28 0.33
9 23 0.27
10 14 0.16
11 3 0.03
12 8 0.09
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
ATATATATT
Found at i:42751 original size:44 final size:41
Alignment explanation
Indices: 42668--42790 Score: 115
Period size: 44 Copynumber: 2.9 Consensus size: 41
42658 ATAATATTAT
* *
42668 TATATAT-TTTAATTTATATTATTATATTAAGTTATTATATTTA
1 TATATATATTT-ATATATATTATT-TATTTA-TTATTATATTTA
* * *
42711 T-TGTTATATTTATATTTATTATTTATATGTATTATATATATTTC
1 TAT-ATATATTTATATATATTATTTAT-T-TATTAT-TATATTTA
*
42755 TATATATATTTCTATATATTATTTATTTATTATTAT
1 TATATATATTTATATATATTATTTATTTATTATTAT
42791 CAGTATTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
41 3 0.05
42 10 0.15
43 20 0.30
44 32 0.48
45 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (41 bp):
TATATATATTTATATATATTATTTATTTATTATTATATTTA
Found at i:42759 original size:40 final size:38
Alignment explanation
Indices: 42662--42759 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 38
42652 TTTTAGATAA
42662 TATTATTATATATTTTA-ATTTATATTATTATATTAAGT
1 TATTA-TATATATTTTATATTTATATTATTATATTAAGT
*
42700 TATTATATTTATTGTTATATTTATATTTATTAT-TTATA-T
1 TATTATATATATT-TTATATTTATA-TTATTATATTA-AGT
42739 GTATTATATATATTTCTATAT
1 -TATTATATATATTT-TATAT
42760 ATATTTCTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
37 7 0.13
38 8 0.15
39 12 0.23
40 25 0.48
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (38 bp):
TATTATATATATTTTATATTTATATTATTATATTAAGT
Found at i:43822 original size:22 final size:22
Alignment explanation
Indices: 43792--43854 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
43782 AGTCATGCAA
*
43792 GAATAAATAAATATATAAGAAAT
1 GAATCAATAAATATA-AAGAAAT
*
43815 -ATTCAAT-AA-ATAAAGAAAT
1 GAATCAATAAATATAAAGAAAT
43834 GAATC-ATAAATATAAAAGAAA
1 GAATCAATAAATAT-AAAGAAA
43855 AGAAATTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 9 0.27
20 8 0.24
21 4 0.12
22 12 0.36
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (22 bp):
GAATCAATAAATATAAAGAAAT
Found at i:53987 original size:29 final size:29
Alignment explanation
Indices: 53890--53981 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
53880 GCATTCCTGA
* * *
53890 TTCTACATGTGATT-TAATTCCCACCCTAT
1 TTCTACATGGGATTAT-ATCCCCATCCTAT
* ***
53919 TTCTACATAGGATTATATCCTTGTCCTAT
1 TTCTACATGGGATTATATCCCCATCCTAT
53948 TTCTACATGGGATTATATCCCCATCCTAT
1 TTCTACATGGGATTATATCCCCATCCTAT
53977 TTCTA
1 TTCTA
53982 TTTGGGTGCC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 50 0.98
30 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.42
Consensus pattern (29 bp):
TTCTACATGGGATTATATCCCCATCCTAT
Found at i:54146 original size:2 final size:2
Alignment explanation
Indices: 54139--54171 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
54129 TTTGTGTTGT
54139 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
54172 TGATATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54462 original size:20 final size:20
Alignment explanation
Indices: 54407--54453 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
54397 AAAATATTTT
54407 TATGAATAGTATCG-TACTA
1 TATGAATAGTATCGATACTA
* *
54426 TATGACTAGTATCGATACTG
1 TATGAATAGTATCGATACTA
54446 TATGAATA
1 TATGAATA
54454 ATACCGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (20 bp):
TATGAATAGTATCGATACTA
Found at i:54576 original size:21 final size:21
Alignment explanation
Indices: 54548--54601 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
54538 ATTGCATGAA
*
54548 TAGTATCGATACCATGAACAG
1 TAGTATCGATACCATGAAAAG
*
54569 TGGTATCGATACCATGAAAAG
1 TAGTATCGATACCATGAAAAG
54590 TAGTATCGATAC
1 TAGTATCGATAC
54602 TATCAGGCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (21 bp):
TAGTATCGATACCATGAAAAG
Found at i:54877 original size:26 final size:26
Alignment explanation
Indices: 54848--54925 Score: 156
Period size: 26 Copynumber: 3.0 Consensus size: 26
54838 AACACAAGAG
54848 AAGAGCTTTTTATTCTTATTTTCCTT
1 AAGAGCTTTTTATTCTTATTTTCCTT
54874 AAGAGCTTTTTATTCTTATTTTCCTT
1 AAGAGCTTTTTATTCTTATTTTCCTT
54900 AAGAGCTTTTTATTCTTATTTTCCTT
1 AAGAGCTTTTTATTCTTATTTTCCTT
54926 TCTCTTCTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (26 bp):
AAGAGCTTTTTATTCTTATTTTCCTT
Found at i:56406 original size:57 final size:57
Alignment explanation
Indices: 56339--56936 Score: 826
Period size: 57 Copynumber: 10.5 Consensus size: 57
56329 GTCCAATATA
* * * *
56339 GAAATTCATACACATAGTATGATTTCTTAACATTTTAGTGTACGAAACGCCCTATGT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
*
56396 GAAATTCATACACTTAGTATGATTTCTTAACATTTTTGCGTACG-AACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
* * **
56452 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTATGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
*
56509 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGC-TAACGAAACACCTTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGT-ACGAAACACCCTATCT
* * *
56566 GAAATTCATACACTTAGTATGATTTTTTAACATTTTAGCTTATGAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
* * * * *
56623 GAAATTCATATACTTAGTATGATTTCTTAACATTTTAACGTACAAAATACCCTATAT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
** * *
56680 GAAATTCATATGCTTAGTATGATTTCTTAACATTTTAGCGTATGAAACTCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
* ** * *
56737 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGAGTAAAAAACTCCCTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
* **
56794 GAAAATTCATACACTTAGTATGATTTCTTAACATTTTACCGTATAAAACACCCTAT-T
1 G-AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
* * * *
56851 AGAAATTCATACATTTAGTATGATTTCTTAACATTTTGGTGTACAAAACGA-CCTATCT
1 -GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAAC-ACCCTATCT
56909 GAAATTCATACACTTAGTATGATTTCTT
1 GAAATTCATACACTTAGTATGATTTCTT
56937 CTATTTTGCA
Statistics
Matches: 485, Mismatches: 49, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
56 52 0.11
57 379 0.78
58 54 0.11
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
Found at i:61013 original size:57 final size:57
Alignment explanation
Indices: 60951--61549 Score: 896
Period size: 57 Copynumber: 10.5 Consensus size: 57
60941 GTCCAATACA
* *
60951 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTATGAAACGCCATATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
61008 GAAATTCATACACTTAGTGTGATTTCTTAACATTTTAGCGTACGAAATGCCTTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
61065 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* ** * *
61122 GGAATTTTTACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATAT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
61179 GAAAATCATACACTTAATATGATTTCTTAACAATTTAGCGTAAGAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
61236 AAAATTCATACACTTAGTATGATTTCTTAAC-TTTTAAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTT-AGCGTACGAAACGCCCTATCT
* * * * *
61293 GAAATTCATATACTTAGTATGATTTCTTAACATTTTAGCGTATGAAACACCATATAT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
61350 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
61407 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* ** * * *
61464 GAAATTCATACACTTAATATGATTTCTTAACATTTTAATGTACAAAACAG-TCTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAAC-GCCCTATCT
61521 GAAATTCATACACTTAGTATGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
61550 TATTTTGCAC
Statistics
Matches: 491, Mismatches: 48, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
56 3 0.01
57 483 0.98
58 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:62984 original size:15 final size:16
Alignment explanation
Indices: 62958--62991 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
62948 CTTTCAAAAC
*
62958 TGAAAAATGAAAGTTT
1 TGAAAAATGAAAATTT
62974 TGAAAAA-GAAAATTT
1 TGAAAAATGAAAATTT
62989 TGA
1 TGA
62992 TTTAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (16 bp):
TGAAAAATGAAAATTT
Found at i:62985 original size:21 final size:21
Alignment explanation
Indices: 62908--62986 Score: 54
Period size: 20 Copynumber: 3.8 Consensus size: 21
62898 CTAAAATGGA
**
62908 TTTTGAAAACCAAAATGAAA-
1 TTTTGAAAAAGAAAATGAAAG
* * *
62928 TTTTGAAAAAG-AATTTAGAG
1 TTTTGAAAAAGAAAATGAAAG
* * *
62948 CTTTCAAAACTGAAAAATGAAAG
1 TTTTGAAAA-AG-AAAATGAAAG
62971 TTTTGAAAAAGAAAAT
1 TTTTGAAAAAGAAAAT
62987 TTTGATTTAA
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
19 5 0.12
20 16 0.39
21 6 0.15
22 1 0.02
23 13 0.32
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.28
Consensus pattern (21 bp):
TTTTGAAAAAGAAAATGAAAG
Found at i:67768 original size:96 final size:96
Alignment explanation
Indices: 67604--67792 Score: 308
Period size: 96 Copynumber: 2.0 Consensus size: 96
67594 AGTATTAACT
* *
67604 AGTAGAATTCATGATCCATAAATCAAGAACAACCATATTTTCCAATGAAAATAGGAAACCATATA
1 AGTAGAATTCATGATCCATAAATCAAGAACAACCATATTTTCCAATGAAAATAAGAAACCAGATA
*
67669 ACACATTTCAGGTAATCATAGTTCATAAACC
66 ACACATTTCAGGTAACCATAGTTCATAAACC
* * *
67700 AGTAG-ATTCCATGATCCATAAATCAAGAACCATCATATTTTCCAGTGAAAATAAGAAACCAGAT
1 AGTAGAATT-CATGATCCATAAATCAAGAACAACCATATTTTCCAATGAAAATAAGAAACCAGAT
67764 AACACATTTCAGGTAACCATAGTTCATAA
65 AACACATTTCAGGTAACCATAGTTCATAA
67793 CCTGATCAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
95 3 0.03
96 83 0.97
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (96 bp):
AGTAGAATTCATGATCCATAAATCAAGAACAACCATATTTTCCAATGAAAATAAGAAACCAGATA
ACACATTTCAGGTAACCATAGTTCATAAACC
Found at i:67857 original size:84 final size:84
Alignment explanation
Indices: 67711--67876 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 84
67701 GTAGATTCCA
* * * * * * *
67711 TGATCCATAAATCAAGAACCATCATATTTTCCAGTGAAAATAAGAAACCAGATAACACATTTCAG
1 TGATCAATAAATCAAGAACCATCATATTTTACAATAAAAACAAGAAACCAGAGAACACATTTCAA
67776 GTAACCATAGTTCATAACC
66 GTAACCATAGTTCATAACC
* * * *
67795 TGATCAATAAATCAAGAACGATCATATTTTACAATAAAAACATATAAA-CATAGAACATATTTCA
1 TGATCAATAAATCAAGAACCATCATATTTTACAATAAAAACA-AGAAACCAGAGAACACATTTCA
67859 AGTAACCATAGTTCATAA
65 AGTAACCATAGTTCATAA
67877 ACCAGTAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
84 66 0.94
85 4 0.06
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (84 bp):
TGATCAATAAATCAAGAACCATCATATTTTACAATAAAAACAAGAAACCAGAGAACACATTTCAA
GTAACCATAGTTCATAACC
Found at i:72778 original size:96 final size:96
Alignment explanation
Indices: 72609--72896 Score: 351
Period size: 96 Copynumber: 3.0 Consensus size: 96
72599 AAGTAGAAAT
* * *
72609 AGTAGATTTCATGATCCATAAATCAGGAACGATCATATTTTCCAATGAAAACAGGAAGCCATATA
1 AGTAGATTCCATGATCCATAAATCAGGAACGATCATATTTTCCAATGAAAACAGGAAACCAAATA
* *
72674 ACACATTTCAGGTAACCATAATTCATAAACC
66 ACAAATTTCAAGTAACCATAATTCATAAACC
* * * * *
72705 AGTAGATTCCATGATCCGTAAACCTGGAATGATCATATTTTCCAGTGAAAACAGGAAACCAAATA
1 AGTAGATTCCATGATCCATAAATCAGGAACGATCATATTTTCCAATGAAAACAGGAAACCAAATA
* *
72770 ACAAATTTCAATTAACCATAGTTCATAAACC
66 ACAAATTTCAAGTAACCATAATTCATAAACC
* * * * * * * * * *
72801 AATAGATTCCATGATCTATAAATCAGGAACGATCATATTTTACATTGAAAGCATGTAACTAGAGA
1 AGTAGATTCCATGATCCATAAATCAGGAACGATCATATTTTCCAATGAAAACAGGAAACCAAATA
* * *
72866 ACATATTTCAAGAAACCATATTTCATAAACC
66 ACAAATTTCAAGTAACCATAATTCATAAACC
72897 CAAAAATCAG
Statistics
Matches: 162, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 162 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (96 bp):
AGTAGATTCCATGATCCATAAATCAGGAACGATCATATTTTCCAATGAAAACAGGAAACCAAATA
ACAAATTTCAAGTAACCATAATTCATAAACC
Found at i:76215 original size:14 final size:14
Alignment explanation
Indices: 76179--76215 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
76169 AATAAAGAAG
*
76179 ATTGAAAAAGTAAA
1 ATTGAAAATGTAAA
76193 ATTGAAAATGTAAA
1 ATTGAAAATGTAAA
76207 ATTGAAAAT
1 ATTGAAAAT
76216 AACTATGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (14 bp):
ATTGAAAATGTAAA
Found at i:77636 original size:13 final size:13
Alignment explanation
Indices: 77618--77644 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77608 TTTTCATAAC
77618 ATTATAAATAATT
1 ATTATAAATAATT
77631 ATTATAAATAATT
1 ATTATAAATAATT
77644 A
1 A
77645 CAAAACTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTATAAATAATT
Found at i:92238 original size:90 final size:90
Alignment explanation
Indices: 92075--92242 Score: 273
Period size: 90 Copynumber: 1.9 Consensus size: 90
92065 TTTTTTATTT
* * * * *
92075 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCTCTTATATGATTAGGGTAACT
1 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGGAACT
92140 CGGATATAAAAGGATTATTAAATTC
66 CGGATATAAAAGGATTATTAAATTC
92165 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGGAACT
1 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGGAACT
* *
92230 TGGCTATAAAAGG
66 CGGATATAAAAGG
92243 GTGTGTTAGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (90 bp):
CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGGAACT
CGGATATAAAAGGATTATTAAATTC
Found at i:98914 original size:90 final size:89
Alignment explanation
Indices: 98807--98981 Score: 253
Period size: 90 Copynumber: 2.0 Consensus size: 89
98797 TCCGGAATAT
* * * * *
98807 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATA-TCTGATATGATTA
1 TTAAATTCAATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAA-ACCCTAATATGACTA
98871 GGGTAACTCGGATATAAAAGGATTA
65 GGGTAACTCGGATATAAAAGGATTA
*
98896 TTAAATTCTAATTAATTAAATACATATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
* *
98961 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTCGGATATAAAAGG
98982 GTGTGTTAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
89 8 0.11
90 68 0.89
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAG
GGTAACTCGGATATAAAAGGATTA
Found at i:101850 original size:18 final size:19
Alignment explanation
Indices: 101808--101858 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
101798 GTGCTCAAAT
101808 CAGTATGGTATCAACTTAA
1 CAGTATGGTATCAACTTAA
**
101827 CAGTATGGTATCAA-TTTC
1 CAGTATGGTATCAACTTAA
*
101845 CAGTATGATATCAA
1 CAGTATGGTATCAA
101859 ATGTCAGTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (19 bp):
CAGTATGGTATCAACTTAA
Found at i:103997 original size:29 final size:28
Alignment explanation
Indices: 103964--104031 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
103954 AAAATAAACC
*
103964 CTAATAACAACTATTGAAAACTTAGGCCT
1 CTAATAACAACTATTAAAAACTTAGG-CT
* * * *
103993 CTAATAAAAAGTATTAAAAATTTTGGCT
1 CTAATAACAACTATTAAAAACTTAGGCT
104021 CTTAATAACAA
1 C-TAATAACAA
104032 ATGTTAGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (28 bp):
CTAATAACAACTATTAAAAACTTAGGCT
Found at i:108344 original size:15 final size:15
Alignment explanation
Indices: 108326--108375 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
108316 TAAAATTTTC
*
108326 AAAAAAAAAAATGAA
1 AAAAAAAAAAAGGAA
108341 AAAATTAAAAAAAGGAA
1 AAAA--AAAAAAAGGAA
* *
108358 AAAAGAAGAAAGGAA
1 AAAAAAAAAAAGGAA
108373 AAA
1 AAA
108376 GGGGAGAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 16 0.53
17 14 0.47
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (15 bp):
AAAAAAAAAAAGGAA
Found at i:110416 original size:9 final size:9
Alignment explanation
Indices: 110402--110454 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
110392 TGATTTCATG
*
110402 TTGACCGGC
1 TTGACCGGT
110411 TTGACCGGT
1 TTGACCGGT
* *
110420 CTGAACCGAT
1 TTG-ACCGGT
110430 TTGACCGGT
1 TTGACCGGT
110439 TTGACCGGT
1 TTGACCGGT
*
110448 CTGACCG
1 TTGACCG
110455 ACCCGTTGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
9 30 0.81
10 7 0.19
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.26
Consensus pattern (9 bp):
TTGACCGGT
Found at i:110442 original size:28 final size:27
Alignment explanation
Indices: 110402--110455 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
110392 TGATTTCATG
110402 TTGACCGGCTTGACCGGTCTGAACCGAT
1 TTGACCGGCTTGACCGGTCTG-ACCGAT
*
110430 TTGACCGGTTTGACCGGTCTGACCGA
1 TTGACCGGCTTGACCGGTCTGACCGA
110456 CCCGTTGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.26
Consensus pattern (27 bp):
TTGACCGGCTTGACCGGTCTGACCGAT
Found at i:110558 original size:28 final size:29
Alignment explanation
Indices: 110502--110665 Score: 194
Period size: 28 Copynumber: 5.8 Consensus size: 29
110492 ATTTTTGTAA
*
110502 AAAAATGTGACATTCTGGGAAATATTTTG
1 AAAAAGGTGACATTCTGGGAAATATTTTG
110531 AAAAAGGTGACA-TCTTGGGAAAT-TTTTG
1 AAAAAGGTGACATTC-TGGGAAATATTTTG
* *
110559 AAAAATGTGACATTTTGGGAAATATTTTG
1 AAAAAGGTGACATTCTGGGAAATATTTTG
* * *
110588 AAAAA-GTAATATTCTAGGAAATATTTTG
1 AAAAAGGTGACATTCTGGGAAATATTTTG
** *
110616 -AAAAGGTGACATTCTAAGAATTATTTTG
1 AAAAAGGTGACATTCTGGGAAATATTTTG
*
110644 AAAAAGGTGACATT-TTGGAAAT
1 AAAAAGGTGACATTCTGGGAAAT
110666 TTTCGAATGT
Statistics
Matches: 116, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.03
28 69 0.59
29 43 0.37
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.34
Consensus pattern (29 bp):
AAAAAGGTGACATTCTGGGAAATATTTTG
Found at i:113412 original size:18 final size:18
Alignment explanation
Indices: 113389--113425 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
113379 CCGCAAGTCT
*
113389 TGGAAAGAAGACTCGTAC
1 TGGAAAGAAGACTCATAC
113407 TGGAAAGAAGACTCATAC
1 TGGAAAGAAGACTCATAC
113425 T
1 T
113426 TCGGGTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (18 bp):
TGGAAAGAAGACTCATAC
Found at i:117995 original size:31 final size:30
Alignment explanation
Indices: 117957--118018 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
117947 TTGATTTCAT
* * *
117957 GTTGACCGGCTTGACCGGTCTGACCCGACCC
1 GTTGACCGACCTGACCCGT-TGACCCGACCC
*
117988 GTTGACCGACCTGACCCGTTGACCTGACCC
1 GTTGACCGACCTGACCCGTTGACCCGACCC
118018 G
1 G
118019 ACCCAGTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.19
Consensus pattern (30 bp):
GTTGACCGACCTGACCCGTTGACCCGACCC
Found at i:118003 original size:17 final size:18
Alignment explanation
Indices: 117976--118022 Score: 78
Period size: 17 Copynumber: 2.7 Consensus size: 18
117966 CTTGACCGGT
117976 CTGACCCGACCCGTTGAC
1 CTGACCCGACCCGTTGAC
*
117994 C-GACCTGACCCGTTGAC
1 CTGACCCGACCCGTTGAC
118011 CTGACCCGACCC
1 CTGACCCGACCC
118023 AGTGGCATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.17, C:0.47, G:0.21, T:0.15
Consensus pattern (18 bp):
CTGACCCGACCCGTTGAC
Found at i:118077 original size:29 final size:30
Alignment explanation
Indices: 118028--118098 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
118018 GACCCAGTGG
* *
118028 CATTCTGGG-AATTTTTGTGAAAAATGTGA
1 CATTTTGGGAAATATTTGTGAAAAATGTGA
118057 CATTTTGGGAAATATTT-TGAAAAATGTGA
1 CATTTTGGGAAATATTTGTGAAAAATGTGA
*
118086 CATTTTGGAAAAT
1 CATTTTGGGAAAT
118099 GTGACATTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 32 0.84
30 6 0.16
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (30 bp):
CATTTTGGGAAATATTTGTGAAAAATGTGA
Found at i:118092 original size:17 final size:17
Alignment explanation
Indices: 118070--118106 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
118060 TTTGGGAAAT
118070 ATTTTGAAAAATGTGAC
1 ATTTTGAAAAATGTGAC
*
118087 ATTTTGGAAAATGTGAC
1 ATTTTGAAAAATGTGAC
118104 ATT
1 ATT
118107 CTGGGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (17 bp):
ATTTTGAAAAATGTGAC
Found at i:118115 original size:17 final size:17
Alignment explanation
Indices: 118077--118115 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
118067 AATATTTTGA
*
118077 AAAATGTGACATTTTGG
1 AAAATGTGACATTCTGG
118094 AAAATGTGACATTCTGG
1 AAAATGTGACATTCTGG
*
118111 GAAAT
1 AAAAT
118116 ATTTTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (17 bp):
AAAATGTGACATTCTGG
Found at i:118128 original size:28 final size:28
Alignment explanation
Indices: 118087--118182 Score: 147
Period size: 28 Copynumber: 3.4 Consensus size: 28
118077 AAAATGTGAC
118087 ATTTTGGAAAATGTGACATTCTGGGAAAT
1 ATTTT-GAAAATGTGACATTCTGGGAAAT
*
118116 ATTTTGAAAATGTGATATTCTGGGAAAT
1 ATTTTGAAAATGTGACATTCTGGGAAAT
* *
118144 ATTTTGAAAAAGGTGACATTCTAGGAAAT
1 ATTTTG-AAAATGTGACATTCTGGGAAAT
118173 ATTTTGAAAA
1 ATTTTGAAAA
118183 AGGGGACATC
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
28 32 0.52
29 30 0.48
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (28 bp):
ATTTTGAAAATGTGACATTCTGGGAAAT
Found at i:118142 original size:46 final size:46
Alignment explanation
Indices: 118048--118142 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
118038 ATTTTTGTGA
* *
118048 AAAATGTGACATTTTGGGAAATATTTTGAAAAATGTGACATTTTGG
1 AAAATGTGACATTCTGGGAAATATTTTGAAAAATGTGACATTTGGG
*
118094 AAAATGTGACATTCTGGGAAATATTTTG-AAAATGTGATATTCTGGG
1 AAAATGTGACATTCTGGGAAATATTTTGAAAAATGTGACATT-TGGG
118140 AAA
1 AAA
118143 TATTTTGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 12 0.27
46 33 0.73
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (46 bp):
AAAATGTGACATTCTGGGAAATATTTTGAAAAATGTGACATTTGGG
Found at i:118230 original size:29 final size:29
Alignment explanation
Indices: 118087--118229 Score: 155
Period size: 29 Copynumber: 5.0 Consensus size: 29
118077 AAAATGTGAC
* *
118087 ATTTTGGAAAATGTGACATTCTGGGAAAT
1 ATTTTGAAAAAGGTGACATTCTGGGAAAT
* *
118116 ATTTTG-AAAATGTGATATTCTGGGAAAT
1 ATTTTGAAAAAGGTGACATTCTGGGAAAT
*
118144 ATTTTGAAAAAGGTGACATTCTAGGAAAT
1 ATTTTGAAAAAGGTGACATTCTGGGAAAT
* * *** *
118173 ATTTTGAAAAAGGGGACATCCAAAGAATT
1 ATTTTGAAAAAGGTGACATTCTGGGAAAT
* *
118202 ATTTTGAAAAAAGTGACATT-TTGGAAAT
1 ATTTTGAAAAAGGTGACATTCTGGGAAAT
118230 TTTCGAATGT
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
28 31 0.32
29 66 0.68
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (29 bp):
ATTTTGAAAAAGGTGACATTCTGGGAAAT
Found at i:124597 original size:29 final size:34
Alignment explanation
Indices: 124538--124608 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 34
124528 GGATTTTTTG
*
124538 TTTATATTTTGATCACTTTTATGTTCTATTTTAT
1 TTTATATTTTGATCACTCTTATGTTCTATTTTAT
124572 TTTAT-TTTTGA-CA-TCTTAT-TTC-ATTTTAT
1 TTTATATTTTGATCACTCTTATGTTCTATTTTAT
124601 TTTA-ATTT
1 TTTATATTT
124609 AGTCATCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
29 14 0.40
30 3 0.09
31 5 0.14
32 2 0.06
33 6 0.17
34 5 0.14
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.66
Consensus pattern (34 bp):
TTTATATTTTGATCACTCTTATGTTCTATTTTAT
Found at i:124615 original size:29 final size:31
Alignment explanation
Indices: 124556--124615 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
124546 TTGATCACTT
* *
124556 TTATGTTCTATTTTATTTTATTTTTGACATC
1 TTATGTTCTATTTTATTTTAATTTAGACATC
*
124587 TTAT-TTC-ATTTTATTTTAATTTAGTCATC
1 TTATGTTCTATTTTATTTTAATTTAGACATC
124616 ATTTTGGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 19 0.73
30 3 0.12
31 4 0.15
ACGTcount: A:0.22, C:0.10, G:0.05, T:0.63
Consensus pattern (31 bp):
TTATGTTCTATTTTATTTTAATTTAGACATC
Found at i:124925 original size:31 final size:31
Alignment explanation
Indices: 124887--124962 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
124877 GTTATATTTT
124887 TAACCACTAACTTTGCTAATTTGTTAACCA-C
1 TAACCACTAACTTTGCTAATTTGTTAA-CAGC
*
124918 TAACCACTAAATTTGCTAATTTGTTAACAGC
1 TAACCACTAACTTTGCTAATTTGTTAACAGC
*
124949 TAACCGCTAACTTT
1 TAACCACTAACTTT
124963 TTATATTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.36
Consensus pattern (31 bp):
TAACCACTAACTTTGCTAATTTGTTAACAGC
Found at i:125159 original size:14 final size:15
Alignment explanation
Indices: 125113--125179 Score: 50
Period size: 14 Copynumber: 4.7 Consensus size: 15
125103 CAATTTTCCC
* *
125113 TTTAAATTTTTGTTA
1 TTTAAATTTTAGTCA
* * *
125128 TTTTAATTTGAG-CC
1 TTTAAATTTTAGTCA
125142 TTTAAATTTTAG-CA
1 TTTAAATTTTAGTCA
* *
125156 TTTACATTTCAGTCA
1 TTTAAATTTTAGTCA
125171 TTT-AATTTT
1 TTTAAATTTT
125180 TTGCACTTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
14 25 0.64
15 14 0.36
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTAAATTTTAGTCA
Found at i:145683 original size:14 final size:13
Alignment explanation
Indices: 145664--145834 Score: 61
Period size: 13 Copynumber: 12.6 Consensus size: 13
145654 TTATATTTGC
145664 ATTATGTATTATTT
1 ATTAT-TATTATTT
* *
145678 ATTATGCATTATAT
1 ATTAT-TATTATTT
*
145692 ATTAGTTATATTATAT
1 ATTA--T-TATTATTT
145708 ATTATTACTTATATT
1 ATTATTA-TTAT-TT
* *
145723 A-TATTAGTATGT
1 ATTATTATTATTT
145735 ATTA-TATATATTT
1 ATTATTAT-TATTT
145748 A-TATT-TATATTT
1 ATTATTAT-TATTT
*
145760 ATT-TTATAATTT
1 ATTATTATTATTT
*
145772 ATAATT-TATATATT
1 ATTATTAT-TAT-TT
*
145786 ATTA-TATTAGTACTA
1 ATTATTATTA-T--TT
*
145801 ATTATTATTCTTT
1 ATTATTATTATTT
*
145814 ATTAATATTA-TT
1 ATTATTATTATTT
145826 ATATATTAT
1 AT-TATTAT
145835 CATATAGTTA
Statistics
Matches: 120, Mismatches: 20, Indels: 35
0.69 0.11 0.20
Matches are distributed among these distances:
12 27 0.22
13 36 0.30
14 33 0.28
15 8 0.07
16 16 0.13
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:145758 original size:12 final size:12
Alignment explanation
Indices: 145697--145787 Score: 64
Period size: 12 Copynumber: 7.3 Consensus size: 12
145687 TATATATTAG
145697 TTATA-TTATAT
1 TTATATTTATAT
*
145708 ATTATTACTTATA-
1 -TTA-TATTTATAT
145721 TTATA-TTAGTAT
1 TTATATTTA-TAT
* *
145733 GTATTATATATAT
1 TTA-TATTTATAT
145746 TTATATTTATAT
1 TTATATTTATAT
145758 TTAT-TTTATAAT
1 TTATATTTAT-AT
145770 TTATAATTTATAT
1 TTAT-ATTTATAT
145783 ATTAT
1 -TTAT
145788 TATATTAGTA
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
10 3 0.05
11 9 0.14
12 26 0.40
13 11 0.17
14 16 0.25
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATATTTATAT
Found at i:145773 original size:18 final size:17
Alignment explanation
Indices: 145736--145780 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
145726 TTAGTATGTA
*
145736 TTATATATA-TTTATAT
1 TTATATTTATTTTATAT
145752 TTATATTTATTTTATAAT
1 TTATATTTATTTTAT-AT
145770 TTATAATTTAT
1 TTAT-ATTTAT
145781 ATATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 5 0.20
18 6 0.24
19 6 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTATTTTATAT
Found at i:145946 original size:7 final size:7
Alignment explanation
Indices: 145664--145964 Score: 113
Period size: 7 Copynumber: 43.7 Consensus size: 7
145654 TTATATTTGC
*
145664 ATTATGT
1 ATTATAT
*
145671 ATTATTT
1 ATTATAT
**
145678 ATTATGC
1 ATTATAT
145685 ATTATAT
1 ATTATAT
145692 ATTAGTTAT
1 ATTA--TAT
145701 ATTATAT
1 ATTATAT
145708 ATTAT-T
1 ATTATAT
*
145714 ACT-TAT
1 ATTATAT
145720 ATTATATT
1 ATTATA-T
* *
145728 AGTATGT
1 ATTATAT
145735 ATTATAT
1 ATTATAT
*
145742 ATATTTAT
1 AT-TATAT
145750 ATT-TAT
1 ATTATAT
145756 ATT-TAT
1 ATTATAT
*
145762 TTTATA-
1 ATTATAT
145768 ATT-TAT
1 ATTATAT
145774 AATTTATAT
1 -A-TTATAT
145783 ATTATTAT
1 ATTA-TAT
145791 ATTAGTACT
1 ATTA-TA-T
145800 AATTAT-T
1 -ATTATAT
* *
145807 ATTCTTT
1 ATTATAT
145814 ATTA-AT
1 ATTATAT
145820 ATTAT-T
1 ATTATAT
145826 A-TATATT
1 ATTATA-T
*
145833 ATCATAT
1 ATTATAT
*
145840 AGTTACAT
1 A-TTATAT
145848 ATTACTAT
1 ATTA-TAT
145856 -TT-T-T
1 ATTATAT
* *
145860 CTTATAA
1 ATTATAT
*
145867 ATT-TAC
1 ATTATAT
145873 ATTATAT
1 ATTATAT
*
145880 AGTATA-
1 ATTATAT
145886 A-TATAT
1 ATTATAT
*
145892 -TTTTA-
1 ATTATAT
* *
145897 AATATTT
1 ATTATAT
145904 ATTATACT
1 ATTATA-T
145912 ATTAT-T
1 ATTATAT
*
145918 ATTACAT
1 ATTATAT
145925 ATTATA-
1 ATTATAT
145931 ATTAT-T
1 ATTATAT
145937 ATTATAT
1 ATTATAT
145944 ATTATTATT
1 ATTA-TA-T
*
145953 CTTATAT
1 ATTATAT
145960 ATTAT
1 ATTAT
145965 TTATCATTAC
Statistics
Matches: 222, Mismatches: 37, Indels: 70
0.67 0.11 0.21
Matches are distributed among these distances:
4 1 0.00
5 13 0.06
6 57 0.26
7 88 0.40
8 43 0.19
9 16 0.07
10 4 0.02
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:145949 original size:22 final size:23
Alignment explanation
Indices: 145882--145951 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 23
145872 CATTATATAG
* * *
145882 TATAATATATTTTTAAATATTTAT
1 TATAAT-TATTATTATATACTTAT
* *
145906 TAT-ACTATTATTAT-TACATAT
1 TATAATTATTATTATATACTTAT
145927 TATAATTATTATTATATA-TTAT
1 TATAATTATTATTATATACTTAT
145949 TAT
1 TAT
145952 TCTTATATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
21 8 0.22
22 23 0.62
23 3 0.08
24 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (23 bp):
TATAATTATTATTATATACTTAT
Found at i:145957 original size:19 final size:19
Alignment explanation
Indices: 145664--145965 Score: 89
Period size: 19 Copynumber: 15.7 Consensus size: 19
145654 TTATATTTGC
* *
145664 ATTATGTATTATTTATTATGC
1 ATTATATATTA-TTATTAT-T
*
145685 ATTATATATTA--GTTA-T
1 ATTATATATTATTATTATT
145701 ATTATATATTATTACTTA-T
1 ATTATATATTATTA-TTATT
*
145720 A-T-TATATTAGTATGTATT
1 ATTATATATTATTAT-TATT
145738 A-TATATATT-TATATT-TAT
1 ATTATATATTAT-TATTAT-T
* * *
145756 ATT-TATTTTATAATTTATA
1 ATTATATATTATTA-TTATT
145775 ATTTATATATTATTA-TATT
1 A-TTATATATTATTATTATT
* *
145794 AGTACTA-ATTATTATTCTTT
1 ATTA-TATATTATTATT-ATT
145814 ATTA-ATATTATTATATATT
1 ATTATATATTATTAT-TATT
* * *
145833 ATCATATAGTTACATATTACT
1 ATTATATA-TTA-TTATTATT
* * * *
145854 ATT-TTTCTTATAAATT-TAC
1 ATTATATATTAT-TATTAT-T
* *
145873 ATTATATAGTATAATATATT
1 ATTATATATTATTAT-TATT
* *
145893 TTTAAATATTTATTATACTATT
1 ATTATATA-TTATTAT--TATT
* *
145915 ATTAT-TACATATTATAATT
1 ATTATATA-TTATTATTATT
145934 ATTAT-TATATATTATTATT
1 ATTATATAT-TATTATTATT
*
145953 CTTATATATTATT
1 ATTATATATTATT
145966 TATCATTACT
Statistics
Matches: 207, Mismatches: 43, Indels: 64
0.66 0.14 0.20
Matches are distributed among these distances:
16 12 0.06
17 12 0.06
18 26 0.13
19 78 0.38
20 29 0.14
21 40 0.19
22 10 0.05
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTATATATTATTATTATT
Found at i:145964 original size:16 final size:16
Alignment explanation
Indices: 145905--145965 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
145895 TAAATATTTA
145905 TTATACTATTATTATTAC
1 TTATA-TATTATTATT-C
* * *
145923 ATAT-TATAATTATTA
1 TTATATATTATTATTC
145938 TTATATATTATTATTC
1 TTATATATTATTATTC
145954 TTATATATTATT
1 TTATATATTATT
145966 TATCATTACT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 3 0.08
16 30 0.83
18 3 0.08
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATATATTATTATTC
Found at i:146575 original size:20 final size:19
Alignment explanation
Indices: 146552--146598 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
146542 CGATATACCA
146552 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
146572 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
146592 CGTAAAA
1 GGTAAAA
146599 CGTTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:146767 original size:180 final size:182
Alignment explanation
Indices: 146340--146811 Score: 714
Period size: 180 Copynumber: 2.6 Consensus size: 182
146330 GATCCAAATT
* * * * **
146340 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGCATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
146405 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
146470 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
*
146522 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
146587 AAACCCGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
146651 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATAC-TTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
* * * *
146702 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACTGATATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
146767 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
146812 CGTAAGTACG
Statistics
Matches: 264, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 106 0.40
181 61 0.23
182 97 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
Found at i:149037 original size:21 final size:21
Alignment explanation
Indices: 149008--149072 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
148998 AAGACAATCA
* *
149008 AGAGTCGAAGAGAAACTTGAT
1 AGAGACGAAGAGAAACTTGAG
149029 AGAGACGAAGAGAAACTTGAG
1 AGAGACGAAGAGAAACTTGAG
* * * *
149050 AGAGTCAAAGATACACTTGAG
1 AGAGACGAAGAGAAACTTGAG
149071 AG
1 AG
149073 GCATAAGGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGACGAAGAGAAACTTGAG
Found at i:149148 original size:33 final size:33
Alignment explanation
Indices: 149106--149171 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
149096 AAATAGATGG
*
149106 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
149139 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
149172 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:150983 original size:19 final size:19
Alignment explanation
Indices: 150959--151007 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
150949 AATGTAGGGT
150959 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
150978 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
150997 TAATTTTGTAT
1 TAATTTTGTAT
151008 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:151463 original size:200 final size:200
Alignment explanation
Indices: 151120--152102 Score: 1720
Period size: 200 Copynumber: 4.9 Consensus size: 200
151110 AATTTACAAT
* * *
151120 ATGGCCAACAGGGTGCAACCATATAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCAGAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
151185 CGAAAACAAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
151250 ATGAGAGAATATGTCTAAATAATGTGTCCACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
151315 AATGA
196 AATGA
* * *
151320 ATGGCCAACAGGGTGCAAACAGAAAGTGTCGATCCATATATAAAAAGTGTTGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCAGAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
151385 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
151450 ATGAGAGAATATGTCTAAATAATGTGTGGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAT
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
151515 AATGA
196 AATGA
*
151520 ATGGCAAACAGGGTGCAACCAGAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCAGAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
151585 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACAGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
151650 ATGAGAGAATATGTGTAAATAATGTGTCGACACTTTTTTAG-TTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
151714 AATGA
196 AATGA
* *
151719 ATGGCAAACAGGGTGCAACCATAAAGTGCCGATCCATATATAAAAAGTGTCGATCCCAAAAAACA
1 ATGGCAAACAGGGTGCAACCAGAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAAACA
* *
151784 TCGAAAATCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTT
65 TCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
151849 TATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCA
*
151914 GAATTA
195 GAATGA
151920 ATGGCAAACAGGGTGCAACC-GTAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACA
1 ATGGCAAACAGGGTGCAACCAG-AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACA
*
151984 TCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
65 TCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
* *
152049 TATGAGATAAT-TGGTCTAAATAATGTGTAGACACTTTTTTAGTTTGTGTCGATA
130 TATGAGAGAATAT-GTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
152103 CTAATTTAAA
Statistics
Matches: 746, Mismatches: 33, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
199 82 0.11
200 583 0.78
201 81 0.11
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCAGAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:153565 original size:6 final size:6
Alignment explanation
Indices: 153551--153636 Score: 91
Period size: 6 Copynumber: 14.3 Consensus size: 6
153541 CAAGCGGTCA
* * * * * * * *
153551 ATGAAG ATGACG ATGATG ACGACG ATGAAG CTGACG ATGAAG ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
*
153599 ACGATG ATGATG ATGATG ATGATG ATGATG ATGATG AT
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG AT
153637 CCAAACAAGT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (6 bp):
ATGATG
Found at i:153636 original size:9 final size:9
Alignment explanation
Indices: 153551--153636 Score: 91
Period size: 9 Copynumber: 9.6 Consensus size: 9
153541 CAAGCGGTCA
*
153551 ATGAAGATG
1 ATGATGATG
*
153560 ACGATGATG
1 ATGATGATG
* *
153569 ACGACGATG
1 ATGATGATG
* * *
153578 AAGCTGACG
1 ATGATGATG
*
153587 ATGAAGATG
1 ATGATGATG
*
153596 ATGACGATG
1 ATGATGATG
153605 ATGATGATG
1 ATGATGATG
153614 ATGATGATG
1 ATGATGATG
153623 ATGATGATG
1 ATGATGATG
153632 ATGAT
1 ATGAT
153637 CCAAACAAGT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 64 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (9 bp):
ATGATGATG
Found at i:155153 original size:183 final size:183
Alignment explanation
Indices: 154845--155423 Score: 1068
Period size: 183 Copynumber: 3.2 Consensus size: 183
154835 ACAAAGTTTT
** *
154845 GACACTTTTTAATATTGTGTATGTACTTTATTTCCAGATTGGAAGAAAAATGTGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTG
*
154910 TCAAAAAGTGTCGACATTTACACATCGAAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
154975 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
155028 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTG
155093 TCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
155158 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
* * *
155211 AACACTTTTTAATATTGTGTCGGTACATTATGTCCATATTGGAAGAAAAATGTGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTG
*
155276 TCAAAAAGTGTCAACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
* *
155341 TAACCGATATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATC
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
155394 GACACTTTTTAATATTGTGTCGGTACTTTA
1 GACACTTTTTAATATTGTGTCGGTACTTTA
155424 CAATAGGAGT
Statistics
Matches: 384, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 384 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTG
TCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
Found at i:158246 original size:23 final size:23
Alignment explanation
Indices: 158215--158264 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
158205 ATAGGTGAAA
*
158215 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
158238 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
158261 ATAT
1 ATAT
158265 TGTAAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:159090 original size:33 final size:33
Alignment explanation
Indices: 159009--159090 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
158999 CACCATAATT
* *
159009 AGGTTGTGTCCACCACAATCCGTATGACACATA
1 AGGTCGTGTCCACCATAATCCGTATGACACATA
*
159042 AGGTCGTGTCCACCATAATTCGTATGACACATA
1 AGGTCGTGTCCACCATAATCCGTATGACACATA
159075 AGGTCGTGTCCACCAT
1 AGGTCGTGTCCACCAT
159091 CTGTACTAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (33 bp):
AGGTCGTGTCCACCATAATCCGTATGACACATA
Found at i:166007 original size:33 final size:33
Alignment explanation
Indices: 165965--166097 Score: 248
Period size: 33 Copynumber: 4.0 Consensus size: 33
165955 ACCGTAGTGC
165965 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
* *
165998 TAATTCGTATGACATATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
166031 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
166064 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
166097 T
1 T
166098 CTGTACTAAG
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 96 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (33 bp):
TAATCCGTATGACACATAAGGTCGTGTCCACCA
Found at i:166033 original size:17 final size:17
Alignment explanation
Indices: 165979--166097 Score: 65
Period size: 17 Copynumber: 7.2 Consensus size: 17
165969 CCGTATGACA
165979 CATAAGGTCGTGTCCAC
1 CATAAGGTCGTGTCCAC
* * *
165996 CATAA-TTCGTAT-GAC
1 CATAAGGTCGTGTCCAC
*
166011 ATATAAGGTCGTGTCCAC
1 -CATAAGGTCGTGTCCAC
* *
166029 CATAA--TCCGTAT-GAC
1 CATAAGGT-CGTGTCCAC
166044 ACATAAGGTCGTGTCCAC
1 -CATAAGGTCGTGTCCAC
* *
166062 CATAA--TCCGTAT-GAC
1 CATAAGGT-CGTGTCCAC
166077 ACATAAGGTCGTGTCCAC
1 -CATAAGGTCGTGTCCAC
166095 CAT
1 CAT
166098 CTGTACTAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 26
0.63 0.14 0.23
Matches are distributed among these distances:
15 8 0.11
16 27 0.37
17 30 0.41
18 8 0.11
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (17 bp):
CATAAGGTCGTGTCCAC
Found at i:172319 original size:19 final size:19
Alignment explanation
Indices: 172297--172343 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
172287 TGTTGAATGA
172297 AAAAAAAAGCAG-CTGTTCG
1 AAAAAAAAG-AGACTGTTCG
*
172316 AAAAAAGAGAGACTGTTCG
1 AAAAAAAAGAGACTGTTCG
172335 AAAGAAAAA
1 AAA-AAAAA
172344 AAGAACACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.55, C:0.11, G:0.21, T:0.13
Consensus pattern (19 bp):
AAAAAAAAGAGACTGTTCG
Found at i:183858 original size:41 final size:41
Alignment explanation
Indices: 183812--184011 Score: 132
Period size: 41 Copynumber: 4.9 Consensus size: 41
183802 ACAAATGTCG
* *
183812 CTAAATACTCGTACTTTAGTGGCATTTTTATATAAACACCG
1 CTAAATACTCGTACTTTAGTGGCGTTTTTATATAAACACCA
* * * * * *
183853 TTAAATA-TTGTACTGTAGTGGCGTTTGTATATAAACGCCG
1 CTAAATACTCGTACTTTAGTGGCGTTTTTATATAAACACCA
* * * * * * * * *
183893 CCAAAGACTTGTAATTTAGTGGTGTTTTAAGCACAAACATCA
1 CTAAATACTCGTACTTTAGTGGCGTTTTTA-TATAAACACCA
* * * **
183935 CTAAATACTAGTACTTTAATGGCGTTTTTAGATAAATGCCA
1 CTAAATACTCGTACTTTAGTGGCGTTTTTATATAAACACCA
* * * * **
183976 TTTAATACTCATACTTTAGTGACAATTTTATATAAA
1 CTAAATACTCGTACTTTAGTGGCGTTTTTATATAAA
184012 TTCATATAAA
Statistics
Matches: 117, Mismatches: 40, Indels: 4
0.73 0.25 0.02
Matches are distributed among these distances:
40 32 0.27
41 56 0.48
42 29 0.25
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (41 bp):
CTAAATACTCGTACTTTAGTGGCGTTTTTATATAAACACCA
Found at i:190046 original size:19 final size:19
Alignment explanation
Indices: 190022--190068 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
190012 AAGCTAATAT
*
190022 GTGCAAGTATACACAATCG
1 GTGCAAGTATACACAATCA
190041 GTGCAAGTATACACAATCA
1 GTGCAAGTATACACAATCA
190060 GTGCAAGTA
1 GTGCAAGTA
190069 ATATAGTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (19 bp):
GTGCAAGTATACACAATCA
Found at i:190196 original size:21 final size:20
Alignment explanation
Indices: 190158--190199 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
190148 AATTAATCCT
190158 ACTAAGTATTAAAGCTAAGA
1 ACTAAGTATTAAAGCTAAGA
190178 ACTAA-TATTAAGGAGCTAAGA
1 ACTAAGTATTAA--AGCTAAGA
190199 A
1 A
190200 TATTGATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 9 0.45
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.24
Consensus pattern (20 bp):
ACTAAGTATTAAAGCTAAGA
Found at i:191712 original size:45 final size:45
Alignment explanation
Indices: 191645--191833 Score: 292
Period size: 45 Copynumber: 4.2 Consensus size: 45
191635 ATCAATAATG
191645 ATATGCATTTCAATTATGGCATCCTTTCATGCCAATAATGCACCC
1 ATATGCATTTCAATTATGGCATCCTTTCATGCCAATAATGCACCC
* *
191690 ATGTGCATTTCAATTATGGCATCCTTTCATG-CACATAATAG-AACC
1 ATATGCATTTCAATTATGGCATCCTTTCATGCCA-ATAAT-GCACCC
*
191735 ATATGCATTTCAATTATGGCATCCTTTCATGTCAATAATGCACCC
1 ATATGCATTTCAATTATGGCATCCTTTCATGCCAATAATGCACCC
* * *
191780 ATATGCATTTCAATTATGGTATCCTTTTATGCCAAAAATGCACCC
1 ATATGCATTTCAATTATGGCATCCTTTCATGCCAATAATGCACCC
191825 ATATGCATT
1 ATATGCATT
191834 ATTTTATTCA
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
44 3 0.02
45 126 0.95
46 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (45 bp):
ATATGCATTTCAATTATGGCATCCTTTCATGCCAATAATGCACCC
Found at i:192449 original size:17 final size:17
Alignment explanation
Indices: 192427--192488 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
192417 TCCCCTTGTT
192427 AGTATCAATTGCCCATC
1 AGTATCAATTGCCCATC
* * *
192444 AGTATCGATACTTCCCCTTGTT
1 AGTATC-A-A-TTGCCC--ATC
192466 AGTATCAATTGCCCATC
1 AGTATCAATTGCCCATC
192483 AGTATC
1 AGTATC
192489 GATACCACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
17 13 0.38
18 1 0.03
19 6 0.18
20 6 0.18
21 1 0.03
22 7 0.21
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (17 bp):
AGTATCAATTGCCCATC
Found at i:192460 original size:39 final size:39
Alignment explanation
Indices: 192406--192493 Score: 176
Period size: 39 Copynumber: 2.3 Consensus size: 39
192396 TGGATCTATG
192406 GTATCGATACTTCCCCTTGTTAGTATCAATTGCCCATCA
1 GTATCGATACTTCCCCTTGTTAGTATCAATTGCCCATCA
192445 GTATCGATACTTCCCCTTGTTAGTATCAATTGCCCATCA
1 GTATCGATACTTCCCCTTGTTAGTATCAATTGCCCATCA
192484 GTATCGATAC
1 GTATCGATAC
192494 CACTTGCATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (39 bp):
GTATCGATACTTCCCCTTGTTAGTATCAATTGCCCATCA
Found at i:193467 original size:46 final size:46
Alignment explanation
Indices: 193395--193513 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
193385 GGGTGATATG
*
193395 TTAGGGACAA-GATGATATATTGGTGTGAAGCGGTAAGAATGGAATA
1 TTAGGGA-AATGATGGTATATTGGTGTGAAGCGGTAAGAATGGAATA
* * * **
193441 TTAGGGAAATGATGGTATATTTGTGTGACGCGGTAAGGATGGTTTA
1 TTAGGGAAATGATGGTATATTGGTGTGAAGCGGTAAGAATGGAATA
* * *
193487 TTCGGGAGATTATGGTATATTGGTGTG
1 TTAGGGAAATGATGGTATATTGGTGTG
193514 CGCCAGTAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
45 2 0.03
46 60 0.97
ACGTcount: A:0.29, C:0.04, G:0.34, T:0.33
Consensus pattern (46 bp):
TTAGGGAAATGATGGTATATTGGTGTGAAGCGGTAAGAATGGAATA
Found at i:194862 original size:53 final size:53
Alignment explanation
Indices: 194800--194906 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
194790 GTGTACTTTC
* *
194800 GGCACTATGTGTGCATCCATGATATTCATAATGAGTTTGTGAATTACCATTTT
1 GGCACTATGTGTGCACCCATGATATTCATAATAAGTTTGTGAATTACCATTTT
* *
194853 GGCACTATGTGTGCACCCATGGTATTCATAATAAGTTTGTGAATTATCATTTT
1 GGCACTATGTGTGCACCCATGATATTCATAATAAGTTTGTGAATTACCATTTT
194906 G
1 G
194907 TTACCTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (53 bp):
GGCACTATGTGTGCACCCATGATATTCATAATAAGTTTGTGAATTACCATTTT
Found at i:203576 original size:45 final size:45
Alignment explanation
Indices: 203525--203734 Score: 307
Period size: 45 Copynumber: 4.7 Consensus size: 45
203515 AATTTCTTTT
* * *
203525 CATTTA-TCCTATAAGATCATAAGCTTATTCTACCAATATACTTAC
1 CATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
*
203570 CATTTATTCCATAAGCTCGTAAGCTTATTTTATCAATATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
** *
203615 CATTTATTTTATAAGCTCGTAAGCTTATTTTACCAAGATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
* * *
203660 CATTTACTCCATAAGCTCCTAAGCTTATTTTACCAATATACTTTC
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
203705 CA-TTATTCCATAAGCTCGTAAGCTTATTTT
1 CATTTATTCCATAAGCTCGTAAGCTTATTTT
203735 TCATGTTTAC
Statistics
Matches: 148, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
44 26 0.18
45 119 0.80
46 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (45 bp):
CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
Found at i:204713 original size:29 final size:30
Alignment explanation
Indices: 204658--204724 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
204648 CAACCATTCA
* * * * *
204658 CAACTTTTCCAAAGTTGTCAAATTGGTTCC
1 CAACTTTTCAAAAATTGACAAAATGGTCCC
204688 CAACTTTTCAAAAATT-ACAAAATGGTCCC
1 CAACTTTTCAAAAATTGACAAAATGGTCCC
*
204717 CAAATTTT
1 CAACTTTT
204725 TCTAATACTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (30 bp):
CAACTTTTCAAAAATTGACAAAATGGTCCC
Found at i:211304 original size:20 final size:20
Alignment explanation
Indices: 211279--211329 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
211269 ATTCAATCAA
* *
211279 TATCGATACCGAAGGG-GGAG
1 TATCGATACCAAAGGGAAG-G
211299 TATCGATACCAAAGGGAAGG
1 TATCGATACCAAAGGGAAGG
211319 TATCGATACCA
1 TATCGATACCA
211330 TTCAAAACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (20 bp):
TATCGATACCAAAGGGAAGG
Found at i:211953 original size:55 final size:56
Alignment explanation
Indices: 211760--212077 Score: 480
Period size: 55 Copynumber: 5.7 Consensus size: 56
211750 TAAGTGTGCA
* * *
211760 AAAACTTAAGAAATTCATACAAAGTGGATGAATTTCCGAATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGT
* * * * *
211816 AAAAATTAAGAAATCCATACTAAGTAGATGAATTTTTGTATAGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGT
*
211872 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGT
* *
211928 -AAACTTAAGAAATTCATACTAAGTGGATGAATTTTTGTAT-GACACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGT
* * *
211982 AAAAATTAAGAAATGCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGT
*
212038 -AAATTTAAGAAATTCATACTAAGTGGATGAATTTTCGTAT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTAT
212078 TTGTAGCAAG
Statistics
Matches: 236, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
54 13 0.06
55 113 0.48
56 110 0.47
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (56 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGT
Found at i:221880 original size:95 final size:95
Alignment explanation
Indices: 221717--221939 Score: 304
Period size: 95 Copynumber: 2.3 Consensus size: 95
221707 TACTGATGAG
* *
221717 GTAGTATCGATGCCATGGTGAGGGTATCGATACCAGGTAACATCGAACCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATGGTGAGGGTATCGATACCAGATAACATCGAACCTAATTTTGGTATCGAT
* * * *
221782 ACCGGAAGGGCGTATCGGTACCCTAGTATA
66 ACCGAAAGGGCGTATCGATACCATAGTAGA
* *
221812 GTAGTATTGATACCATGGTGAGGGTATCGATACCAAGAT-ACATCGAAGCTAATTTTGGTATCGA
1 GTAGTATCGATACCATGGTGAGGGTATCGATACC-AGATAACATCGAACCTAATTTTGGTATCGA
* *
221876 TACCGAAAGGGGGTATCGATACCATAGTAGG
65 TACCGAAAGGGCGTATCGATACCATAGTAGA
* ** *
221907 GTAGTATCAATACCATATTAAGGGTATCGATAC
1 GTAGTATCGATACCATGGTGAGGGTATCGATAC
221940 TAAAGGGCCA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
95 109 0.97
96 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTGAGGGTATCGATACCAGATAACATCGAACCTAATTTTGGTATCGAT
ACCGAAAGGGCGTATCGATACCATAGTAGA
Found at i:221908 original size:19 final size:19
Alignment explanation
Indices: 221868--221939 Score: 56
Period size: 22 Copynumber: 3.6 Consensus size: 19
221858 AGCTAATTTT
* *
221868 GGTATCGATACCGAAAG-GG
1 GGTATCGATACC-ATAGTAG
221887 GGTATCGATACCATAGTAGG
1 GGTATCGATACCATAGTA-G
* *
221907 GTAGTATCAATACCATATTAAG
1 G--GTATCGATACCATAGT-AG
221929 GGTATCGATAC
1 GGTATCGATAC
221940 TAAAGGGCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 3 0.07
19 12 0.28
20 11 0.26
22 16 0.37
23 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (19 bp):
GGTATCGATACCATAGTAG
Found at i:221919 original size:22 final size:23
Alignment explanation
Indices: 221888--221932 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
221878 CCGAAAGGGG
*
221888 GTATCGATACCATAGT-AGGGTA
1 GTATCAATACCATAGTAAGGGTA
*
221910 GTATCAATACCATATTAAGGGTA
1 GTATCAATACCATAGTAAGGGTA
221933 TCGATACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (23 bp):
GTATCAATACCATAGTAAGGGTA
Found at i:221939 original size:20 final size:20
Alignment explanation
Indices: 221886--221939 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
221876 TACCGAAAGG
*
221886 GGGTATCGATACCATAGTAG
1 GGGTATCGATACCATAGTAA
* *
221906 GGTAGTATCAATACCATATTAA
1 GG--GTATCGATACCATAGTAA
221928 GGGTATCGATAC
1 GGGTATCGATAC
221940 TAAAGGGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:222491 original size:59 final size:59
Alignment explanation
Indices: 222262--222479 Score: 346
Period size: 59 Copynumber: 3.7 Consensus size: 59
222252 GAATTACCAA
* *
222262 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATATTAAGTGTATGAATTTCCAAAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* * *
222321 AGGGCATTTCCTTTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* * *
222380 AGAGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCTAGAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* *
222439 AGGGCACTTCATGTGCTAAAATGATAAGGAAATCATACTAA
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAA
222480 TCGTATTAAT
Statistics
Matches: 144, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 144 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (59 bp):
AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
Found at i:231443 original size:94 final size:95
Alignment explanation
Indices: 231290--231467 Score: 288
Period size: 94 Copynumber: 1.9 Consensus size: 95
231280 GGTAGTATTG
* *
231290 ATACCATGGTGAGGGTATCGATACCAAGTACCATAAAATCTAATTTTGGTATCGATACCGG-AAG
1 ATACCATGGTGAGGGTATCGATACCAAGTACCATAAAATATAATTTTGGTATCAATACCGGAAAG
* *
231354 GGGTATCGGTACCGTAGTATATTAGTATCA
66 GGGTATCGATACCATAGTATATTAGTATCA
*
231384 ATACCATGGTGAGGGTATCGATACCAAGATA-CATCAAATATAATTTTGGTATCAATACCGGAAA
1 ATACCATGGTGAGGGTATCGATACCAAG-TACCATAAAATATAATTTTGGTATCAATACCGGAAA
231448 GGGGTATCGATACCATAGTA
65 GGGGTATCGATACCATAGTA
231468 GGGTAGTATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
94 55 0.71
95 22 0.29
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (95 bp):
ATACCATGGTGAGGGTATCGATACCAAGTACCATAAAATATAATTTTGGTATCAATACCGGAAAG
GGGTATCGATACCATAGTATATTAGTATCA
Found at i:231498 original size:20 final size:20
Alignment explanation
Indices: 231449--231501 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
231439 TACCGGAAAG
*
231449 GGGTATCGATACCATAGTAG
1 GGGTATCGATACCATAGTAA
* *
231469 GGTAGTATCGATACTATATTAA
1 GG--GTATCGATACCATAGTAA
231491 GGGTATCGATA
1 GGGTATCGATA
231502 TTGAAGGGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:231900 original size:59 final size:59
Alignment explanation
Indices: 231825--232219 Score: 673
Period size: 59 Copynumber: 6.7 Consensus size: 59
231815 GAATTACCAA
231825 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
*
231884 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAAAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* *
231943 AGGGAACTTCGTGTGCTAAAATGGTAAGGAAGTCATACTAAGTGTATGAATTTCCAGAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
*
232002 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* *
232061 AGGGTACTTCGTGTGTTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* * * * *
232120 AGGGCACTTTGTGTGCGAAAATGGAAAGGAAATCAAACTAAGTGTATGAATTTCCAAAT
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* *
232179 AAGGCACTTCGTGTGCTAAAATGATAAGGAAATCATACTAA
1 AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAA
232220 TCGTATAAAT
Statistics
Matches: 313, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 313 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (59 bp):
AGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
Found at i:246297 original size:29 final size:28
Alignment explanation
Indices: 246264--246392 Score: 93
Period size: 29 Copynumber: 4.4 Consensus size: 28
246254 TGAAGGGGTA
246264 CTAAAATGTAAATAATAAAATATAAAGTG
1 CTAAAATGTAAATAATAAAATA-AAAGTG
* * *
246293 CTAAAATATTGATAA-AATGAAATAAAGGTG
1 CTAAAAT-GT-A-AATAATAAAATAAAAGTG
* * *
246323 CTAAAATATAAATAAAGGAAAATAAAA-TA
1 CTAAAATGTAAAT-AA-TAAAATAAAAGTG
*
246352 CTATAATGTAAATAAAGTAAAATAAAA-TG
1 CTAAAATGTAAAT-AA-TAAAATAAAAGTG
*
246381 CTAAAAAGTAAA
1 CTAAAATGTAAA
246393 AATGCAAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
27 2 0.03
28 1 0.01
29 46 0.57
30 20 0.25
31 9 0.11
32 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.25
Consensus pattern (28 bp):
CTAAAATGTAAATAATAAAATAAAAGTG
Found at i:246530 original size:21 final size:22
Alignment explanation
Indices: 246479--246530 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
246469 GAATCGAAAT
246479 AATATAAAAGTTAGTGAGTCGG
1 AATATAAAAGTTAGTGAGTCGG
246501 AATATAAAAGTTAGTGAGTCGG
1 AATATAAAAGTTAGTGAGTCGG
246523 AA-ATAAAA
1 AATATAAAA
246531 TAAGGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (22 bp):
AATATAAAAGTTAGTGAGTCGG
Found at i:248002 original size:49 final size:48
Alignment explanation
Indices: 247898--248002 Score: 108
Period size: 49 Copynumber: 2.1 Consensus size: 48
247888 TCACACTCCA
* * *
247898 ATTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCCATATTATCG
1 ATTTTCCTTTTCATCGCGACTAGGAGGGTTGGATAGA-CCATATCATCG
*
247947 -TGTTTCCTTTTCATTGCGACTAGGAGGGCTT-GATAGA-CATTATCCATCG
1 AT-TTTCCTTTTCATCGCGACTAGGAGGG-TTGGATAGACCA-TAT-CATCG
247996 ATTTTCC
1 ATTTTCC
248003 ATATATCCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
47 2 0.04
48 4 0.09
49 38 0.81
50 3 0.06
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (48 bp):
ATTTTCCTTTTCATCGCGACTAGGAGGGTTGGATAGACCATATCATCG
Found at i:248495 original size:17 final size:17
Alignment explanation
Indices: 248465--248528 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
248455 TTTGCTATTT
*
248465 AAAAAAAAACAAAAAAAC
1 AAAAACAAA-AAAAAAAC
**
248483 AAAAACAAAAAAAAGGC
1 AAAAACAAAAAAAAAAC
248500 AAAAACAAAAAAATAAA-
1 AAAAACAAAAAAA-AAAC
*
248517 AAAAATAAAAAA
1 AAAAACAAAAAA
248529 GCCAAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 30 0.77
18 9 0.23
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (17 bp):
AAAAACAAAAAAAAAAC
Found at i:248502 original size:25 final size:24
Alignment explanation
Indices: 248465--248521 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
248455 TTTGCTATTT
248465 AAAAAAAAACAAAAA-AACAAAAAC
1 AAAAAAAAACAAAAACAA-AAAAAC
* *
248489 AAAAAAAAGGCAAAAACAAAAAAAT
1 AAAAAAAA-ACAAAAACAAAAAAAC
248514 AAAAAAAA
1 AAAAAAAA
248522 TAAAAAAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 8 0.28
25 19 0.66
26 2 0.07
ACGTcount: A:0.86, C:0.09, G:0.04, T:0.02
Consensus pattern (24 bp):
AAAAAAAAACAAAAACAAAAAAAC
Found at i:248504 original size:31 final size:32
Alignment explanation
Indices: 248469--248535 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
248459 CTATTTAAAA
* *
248469 AAAAACAAAAAAACAAAAACAA-AAAAAAGGC
1 AAAAACAAAAAAACAAAAAAAATAAAAAAGCC
*
248500 AAAAACAAAAAAATAAAAAAAATAAAAAAGCC
1 AAAAACAAAAAAACAAAAAAAATAAAAAAGCC
248532 AAAA
1 AAAA
248536 TTTCAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 20 0.62
32 12 0.38
ACGTcount: A:0.82, C:0.10, G:0.04, T:0.03
Consensus pattern (32 bp):
AAAAACAAAAAAACAAAAAAAATAAAAAAGCC
Found at i:248528 original size:8 final size:8
Alignment explanation
Indices: 248467--248520 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
248457 TGCTATTTAA
248467 AAAAAAAC
1 AAAAAAAC
248475 AAAAAAAC
1 AAAAAAAC
*
248483 AAAAACA-
1 AAAAAAAC
*
248490 AAAAAAAG
1 AAAAAAAC
**
248498 GCAAAAAC
1 AAAAAAAC
*
248506 AAAAAAAT
1 AAAAAAAC
248514 AAAAAAA
1 AAAAAAA
248521 ATAAAAAAGC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 6 0.16
8 31 0.84
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:250200 original size:21 final size:21
Alignment explanation
Indices: 250159--250202 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
250149 TTCAGTGAAC
* *
250159 ATTACCAAGGTACTTCATCCT
1 ATTACCAAGGTAATCCATCCT
*
250180 ATTACCAAGGTAATCCTTCCT
1 ATTACCAAGGTAATCCATCCT
250201 AT
1 AT
250203 CTTCTACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (21 bp):
ATTACCAAGGTAATCCATCCT
Found at i:267325 original size:13 final size:12
Alignment explanation
Indices: 267298--267350 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 12
267288 ATCAAAGAAG
267298 GAAA-AAAATAA
1 GAAATAAAATAA
267309 -AAATAAAATAA
1 GAAATAAAATAA
*
267320 TGAAATAAAGTAA
1 -GAAATAAAATAA
*
267333 TAAAGTAAAATAA
1 GAAA-TAAAATAA
267346 GAAAT
1 GAAAT
267351 TTTCCCTCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 3 0.09
11 7 0.21
12 4 0.12
13 20 0.59
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
GAAATAAAATAA
Found at i:274532 original size:90 final size:90
Alignment explanation
Indices: 274379--274565 Score: 302
Period size: 90 Copynumber: 2.1 Consensus size: 90
274369 GTGCATGAAG
* * * **
274379 TTTATATCCATAGGTGGTAGTGGATCCCATTCAGATGGTTACCAACAGTAAACCCGTGCTTTGAC
1 TTTATCTCCATAGGTGGCAGTGGACCCCATTCAGATGGTTACCAACAACAAACCCGTGCTTTGAC
* *
274444 AGATGCCCTCTTGTGAAAATATGTT
66 AGATGCCCTCCTGTGAAAATATGTC
*
274469 TTTATCTCCATAGGTGGCAGTGGACCCCATTCAGATGGTTACCAACAACAGACCCGTGCTTTGAC
1 TTTATCTCCATAGGTGGCAGTGGACCCCATTCAGATGGTTACCAACAACAAACCCGTGCTTTGAC
274534 AGATGCCCTCCTGTGAAAATATGTC
66 AGATGCCCTCCTGTGAAAATATGTC
274559 TTTATCT
1 TTTATCT
274566 TTTTATACGC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (90 bp):
TTTATCTCCATAGGTGGCAGTGGACCCCATTCAGATGGTTACCAACAACAAACCCGTGCTTTGAC
AGATGCCCTCCTGTGAAAATATGTC
Found at i:278671 original size:208 final size:209
Alignment explanation
Indices: 278299--278763 Score: 496
Period size: 208 Copynumber: 2.2 Consensus size: 209
278289 TTTCTCAAGG
* * *
278299 AGAAATTTGTTTCAAGAGAAACAATCACACA-TGAGATAAATTTTTTCTATTTTGCTGAAATGTT
1 AGAAATTTGTTTCAAGAGAAACAATCTCA-AGTGAGATAATTTTTTTCTATTTTGCTGAAATGAT
* * * * *
278363 CTTAGAGTTTGAGGTTTGAGGGAAATTGTCTTGAGCAAGATGGAATTTTGTTTCAAGGGAAATAA
65 CTTAGAGTTTGAGGTTTGAGAGAAACTATCTTGAGCAAGATGGAATTTTGTTTCAAGCGAAACAA
* *** * *
278428 CATTAAGTGAGATAAAATTTTTGTTTAAAGTGAAACAAT-TTTACTGTTCGTATTTCAAGGGAAA
130 CATTAAATGAGATAAAAAAATTGTTTAAAGTGAAACAATCTTAAAT-TTCGTATTTCAAGGGAAA
278492 ATGTCTCAAGTGAGA-
194 ATGTCTCAAGTGAGAC
* *
278507 AGAAATTTGTTTCAAGAGAAACAATCTCAAGTTAGATAATTTTTTTCT-TTTTGAGTGAAATGAT
1 AGAAATTTGTTTCAAGAGAAACAATCTCAAGTGAGATAATTTTTTTCTATTTTG-CTGAAATGAT
** * * * **
278571 CTT-GATGTTTTTGTTTTGAGAGAAACTATTTTGAGCGAGAT-GAACTTTTG-TTCAAGCGAGGC
65 CTTAGA-GTTTGAGGTTTGAGAGAAACTATCTTGAGCAAGATGGAA-TTTTGTTTCAAGCGAAAC
* *** * *
278633 AACCTTAAATGAGATTAAAAAAATTGTTTCGCGTGAAACAATCTTAAATTTTGTGTTTCAAGGGA
128 AACATTAAATGAGA-TAAAAAAATTGTTTAAAGTGAAACAATCTTAAATTTCGTATTTCAAGGGA
* *
278698 AATTGTTTCAAGTGAGAC
192 AAATGTCTCAAGTGAGAC
* * *
278716 A-AAATTTTTATTTCAAGCGAAATAATCTCAAGTGAGATAATTTTTTTC
1 AGAAA--TTTGTTTCAAGAGAAACAATCTCAAGTGAGATAATTTTTTTC
278764 CGAGTGAAAC
Statistics
Matches: 213, Mismatches: 35, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
207 31 0.15
208 139 0.65
209 5 0.02
210 38 0.18
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.37
Consensus pattern (209 bp):
AGAAATTTGTTTCAAGAGAAACAATCTCAAGTGAGATAATTTTTTTCTATTTTGCTGAAATGATC
TTAGAGTTTGAGGTTTGAGAGAAACTATCTTGAGCAAGATGGAATTTTGTTTCAAGCGAAACAAC
ATTAAATGAGATAAAAAAATTGTTTAAAGTGAAACAATCTTAAATTTCGTATTTCAAGGGAAAAT
GTCTCAAGTGAGAC
Found at i:278732 original size:38 final size:39
Alignment explanation
Indices: 278678--278752 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
278668 AAACAATCTT
* * ** *
278678 AAATTTTGTGTTTCAAGGGAAATTGTTTCAAGTGAGACA
1 AAATTTTGTATTTCAAGCGAAATAATCTCAAGTGAGACA
278717 AAATTTT-TATTTCAAGCGAAATAATCTCAAGTGAGA
1 AAATTTTGTATTTCAAGCGAAATAATCTCAAGTGAGA
278753 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 24 0.77
39 7 0.23
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (39 bp):
AAATTTTGTATTTCAAGCGAAATAATCTCAAGTGAGACA
Found at i:278808 original size:15 final size:15
Alignment explanation
Indices: 278788--278826 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
278778 TTAAAGTTTT
278788 TGTTTCAAGGAAAAC
1 TGTTTCAAGGAAAAC
278803 TGTTTCAAGGAAAAC
1 TGTTTCAAGGAAAAC
*
278818 TGTCTCAAG
1 TGTTTCAAG
278827 TGAGATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (15 bp):
TGTTTCAAGGAAAAC
Found at i:280122 original size:95 final size:95
Alignment explanation
Indices: 279975--280151 Score: 239
Period size: 95 Copynumber: 1.9 Consensus size: 95
279965 TACTGATAAG
* * * * * *
279975 GTAGTATCGATACCATGGTGAGGGTATCGATACCAGGTAACATTGGACCTAATTTTGGTATCAAT
1 GTAGTATCGATACCATAGTGAGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGCATCAAT
*
280040 ACCGGA-AGGGTGTATCGGTACACTAGCATA
66 ACC-GATAGGGGGTATCGGTACACTAGCATA
* * * *
280070 GTAGTATCGATACCATAGTGCGGGTATCGATACCAAGCCACATCGAAGCTAATTTTGGCATCGAT
1 GTAGTATCGATACCATAGTGAGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGCATCAAT
280135 ACCGATAGGGGGTATCG
66 ACCGATAGGGGGTATCG
280152 ATACCATGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
94 2 0.03
95 68 0.97
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (95 bp):
GTAGTATCGATACCATAGTGAGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGCATCAAT
ACCGATAGGGGGTATCGGTACACTAGCATA
Found at i:281227 original size:27 final size:25
Alignment explanation
Indices: 281189--281274 Score: 65
Period size: 27 Copynumber: 3.5 Consensus size: 25
281179 GCCTTAATGC
*
281189 ATCCTTTCATGCATTTTCAATTATGG
1 ATCCGTTCATGCATTTT-AATTATGG
*
281215 AATCCGTTCATGC--CTT-A--ATGG
1 -ATCCGTTCATGCATTTTAATTATGG
*
281236 ATCCTTTCATGCATTTTTAATTATGG
1 ATCCGTTCATGCA-TTTTAATTATGG
*
281262 TATCTGTTCATGC
1 -ATCCGTTCATGC
281275 CTTAATGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
20 11 0.24
21 4 0.09
23 3 0.07
24 1 0.02
25 2 0.04
26 4 0.09
27 21 0.46
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (25 bp):
ATCCGTTCATGCATTTTAATTATGG
Found at i:281306 original size:47 final size:47
Alignment explanation
Indices: 281069--281307 Score: 352
Period size: 47 Copynumber: 5.1 Consensus size: 47
281059 TTTAATATAC
* *
281069 ATGGCATCCTTTCATTCCTTAATGCATCCTTATCATGCATTTTCAATT
1 ATGGCATCCGTTCATGCCTTAATGCATCCTT-TCATGCATTTTCAATT
* * * *
281117 ACGACATCTGTTCATGCCTTAATGCATCATTTCATGCATTTTCAATT
1 ATGGCATCCGTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATT
* *
281164 ATAGCATCCGTTCGTGCCTTAATGCATCCTTTCATGCATTTTCAATT
1 ATGGCATCCGTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATT
* * *
281211 ATGGAATCCGTTCATGCCTTAATGGATCCTTTCATGCATTTTTAATT
1 ATGGCATCCGTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATT
* *
281258 ATGGTATCTGTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATT
1 ATGGCATCCGTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATT
281305 ATG
1 ATG
281308 AATTTGATTT
Statistics
Matches: 170, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
47 145 0.85
48 25 0.15
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (47 bp):
ATGGCATCCGTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATT
Found at i:281605 original size:20 final size:20
Alignment explanation
Indices: 281580--281630 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
281570 GATGTTTCAT
281580 GGTATCGATACCCTTACCAC
1 GGTATCGATACCCTTACCAC
*
281600 GGTATCGATACCCTTACCAT
1 GGTATCGATACCCTTACCAC
*
281620 GATATCGATAC
1 GGTATCGATAC
281631 TACTATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (20 bp):
GGTATCGATACCCTTACCAC
Found at i:282638 original size:235 final size:236
Alignment explanation
Indices: 282226--282699 Score: 941
Period size: 235 Copynumber: 2.0 Consensus size: 236
282216 ATATACGAGG
282226 ATTCGATAACCAATAAAAATTGAAGGAATAAATCATTAACTTGAAAATTTACCTTTGAGGTATGG
1 ATTCGATAACCAATAAAAATTGAAGGAATAAATCATTAACTTGAAAATTTACCTTTGAGGTATGG
282291 AGGAGCTTAGGTTACGGGGAAAGATGAAGAAAAGAGAGAAAGAAGACTTTTGTAACCTAATCCCC
66 AGGAGCTTAGGTTACGGGGAAAGATGAAGAAAAGAGAGAAAGAAGACTTTTGTAACCTAATCCCC
282356 CTTTTGCCTTTTCTTTAATACCATCTAAAGGACATTTTAAATTATTTTTCATTTAAAAGACCAAA
131 CTTTTGCCTTTTCTTTAATACCATCTAAAGGACATTTTAAATTATTTTTCATTTAAAAGACCAAA
282421 ATACCTTCTTAATACTCCATTTTCACAATTTAGTCTAAATT
196 ATACCTTCTTAATACTCCATTTTCACAATTTAGTCTAAATT
282462 ATTCGATAACCAATAAAAATTGAAGGAATAAATCATTAACTTGAAAATTTACCTTTGAGGTATGG
1 ATTCGATAACCAATAAAAATTGAAGGAATAAATCATTAACTTGAAAATTTACCTTTGAGGTATGG
282527 AGGAGCTTA-GTTACGGGGAAAGATGAAGAAAAGAGAGAAAGAAGACTTTTGTAACCTAATCCCC
66 AGGAGCTTAGGTTACGGGGAAAGATGAAGAAAAGAGAGAAAGAAGACTTTTGTAACCTAATCCCC
282591 CTTTTGCCTTTTCTTTAATACCATCTAAAGGACATTTTAAATTATTTTTCATTTAAAAGACCAAA
131 CTTTTGCCTTTTCTTTAATACCATCTAAAGGACATTTTAAATTATTTTTCATTTAAAAGACCAAA
282656 ATACCTTCTTAATACTCCATTTTCACAATTTAGTCTAAATT
196 ATACCTTCTTAATACTCCATTTTCACAATTTAGTCTAAATT
282697 ATT
1 ATT
282700 AATTCTAATC
Statistics
Matches: 238, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
235 164 0.69
236 74 0.31
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (236 bp):
ATTCGATAACCAATAAAAATTGAAGGAATAAATCATTAACTTGAAAATTTACCTTTGAGGTATGG
AGGAGCTTAGGTTACGGGGAAAGATGAAGAAAAGAGAGAAAGAAGACTTTTGTAACCTAATCCCC
CTTTTGCCTTTTCTTTAATACCATCTAAAGGACATTTTAAATTATTTTTCATTTAAAAGACCAAA
ATACCTTCTTAATACTCCATTTTCACAATTTAGTCTAAATT
Found at i:288206 original size:20 final size:20
Alignment explanation
Indices: 288183--288367 Score: 82
Period size: 20 Copynumber: 8.2 Consensus size: 20
288173 ATGGCATCTG
288183 TTCATGCCTTAATGCATCCT
1 TTCATGCCTTAATGCATCCT
* *
288203 TTCATGCATTTCAATTATGGCATCCA
1 TTCATGC-CTT--A--AT-GCATCCT
*
288229 TTCATGCCTTAATGCATCAT
1 TTCATGCCTTAATGCATCCT
* *
288249 TTCATGCATTTTCAATTATGGCATCCG
1 TTCATGC--CTT--A--AT-GCATCCT
* *
288276 TTCATGTCTTAATGCATCAT
1 TTCATGCCTTAATGCATCCT
* * *
288296 TTCATGCATTTTCAATTATGGCATTCG
1 TTCATGC--CTT--A--AT-GCATCCT
*
288323 TTCATGCCTTAATGCATCAT
1 TTCATGCCTTAATGCATCCT
*
288343 TTCATACCTTAATGCATCCT
1 TTCATGCCTTAATGCATCCT
288363 TTCAT
1 TTCAT
288368 TCATTTTCAA
Statistics
Matches: 122, Mismatches: 23, Indels: 40
0.66 0.12 0.22
Matches are distributed among these distances:
20 57 0.47
21 8 0.07
22 4 0.03
23 4 0.03
24 2 0.02
25 8 0.07
26 17 0.14
27 22 0.18
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCT
Found at i:288272 original size:27 final size:27
Alignment explanation
Indices: 288242--288319 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
288232 ATGCCTTAAT
288242 GCATCATTTCATGCATTTTCAATTATG
1 GCATCATTTCATGCATTTTCAATTATG
** *
288269 GCATCCGTTCATG--TCTT--A--AT-
1 GCATCATTTCATGCATTTTCAATTATG
288289 GCATCATTTCATGCATTTTCAATTATG
1 GCATCATTTCATGCATTTTCAATTATG
288316 GCAT
1 GCAT
288320 TCGTTCATGC
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 11 0.29
21 2 0.05
22 3 0.08
23 1 0.03
24 1 0.03
25 3 0.08
26 2 0.05
27 15 0.39
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (27 bp):
GCATCATTTCATGCATTTTCAATTATG
Found at i:288280 original size:47 final size:47
Alignment explanation
Indices: 288104--288347 Score: 359
Period size: 47 Copynumber: 5.2 Consensus size: 47
288094 TTAACACATC
* *
288104 CATTT-ATGCATTTT-AATATACATGGCATCCTTTCATACCTTAATGCAT
1 CATTTCATGCATTTTCAAT-T--ATGGCATCCGTTCATGCCTTAATGCAT
* *
288152 CATTATCGTGCATTTTCAATTATGGCATCTGTTCATGCCTTAATGCAT
1 CATT-TCATGCATTTTCAATTATGGCATCCGTTCATGCCTTAATGCAT
* *
288200 CCTTTCATGCA-TTTCAATTATGGCATCCATTCATGCCTTAATGCAT
1 CATTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTAATGCAT
*
288246 CATTTCATGCATTTTCAATTATGGCATCCGTTCATGTCTTAATGCAT
1 CATTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTAATGCAT
*
288293 CATTTCATGCATTTTCAATTATGGCATTCGTTCATGCCTTAATGCAT
1 CATTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTAATGCAT
288340 CATTTCAT
1 CATTTCAT
288348 ACCTTAATGC
Statistics
Matches: 179, Mismatches: 13, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
46 43 0.24
47 92 0.51
48 31 0.17
49 1 0.01
50 9 0.05
51 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (47 bp):
CATTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTAATGCAT
Found at i:289901 original size:59 final size:59
Alignment explanation
Indices: 289809--290376 Score: 796
Period size: 59 Copynumber: 9.6 Consensus size: 59
289799 GGGCATTACA
* * * * *
289809 AAAATGGTAAGGAAATCATATTAAGTGTATGCATTTCTAGATAGGGCACTTCGTGTGCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
* * * * *
289868 AAAATGATAAGGAAATAATACTAAGAGTATGCATTTCCAGATAGGGCAATGTT-TGTTCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACT-TTGTGTGCT
* **
289927 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAAAGCACTTTGTGTGCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
* * * * *
289986 AAAATAATAAGGAAATCACACTAAGTGTATGATTTTCCAAATAAGGCACTTTGTGTGCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
* * *
290045 AAAATGATAAGGAAATCATACTATGTGTATGAATTTCCATATAGGGCACTTTGTCTGCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
* * *
290104 AATATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATATGGCATTTTGTGTGCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
* * *
290163 AAAATGATAAAGAAATCATACTAAGTGTATGAATTTCCAGATAGGGTACTTCGTGTGCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
* * * *
290222 AAAATTATAAGGAAATAATACTAAGTGTATGAATTTCCAGATACGACACTTTGTGTGCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
* * *
290281 AAAATGATTAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCAATTTGTGTGCT
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
* *
290340 AAAATGATAAGGAAATCATACTAATTGTATAAATTTC
1 AAAATGATAAGGAAATCATACTAAGTGTATGAATTTC
290377 TTATTGAATT
Statistics
Matches: 449, Mismatches: 58, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
58 2 0.00
59 446 0.99
60 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (59 bp):
AAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCT
Done.